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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACATgtatgccctttacattcttaccgtactttcaatcttgataactagaaatgactgccagtgttcagaacgcatcttttgctggaatgtcctgctaagctcg...

Basic information

species Physcomitrella patens
transcript PP1S425_16V6.1
intron # 4
splice site 5'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|208384789|gb|DC907402.1|DC907402
EST:     GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACAT                         TGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTTATCANCGGTGT
genomic: GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACATgtatgccctt ... attcgcgcagTGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTTATCAACGGTGT
EST: gi|162186160|gb|FC361364.1|FC361364
EST:     GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACAT                         TGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATT
genomic: GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACATgtatgccctt ... attcgcgcagTGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATT
EST: gi|100442509|gb|BY963203.1|BY963203
EST:     GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACAT                         TGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTTTATCA-CGGTG
genomic: GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACATgtatgccctt ... attcgcgcagTGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTT-ATCAACGGTG
EST: gi|162265882|gb|FC442885.1|FC442885
EST:     GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACAT                         TGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTTATCAACGGTGT
genomic: GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACATgtatgccctt ... attcgcgcagTGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTTATCAACGGTGT

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 34 (downstream exon)
Score: 10

GTGGTCAGTGGTATCAACAAAGGCTCCAACTGTGGTTACCACATgtatgccctt ... attcgcgcagTGTATACTCAGGTACAGTGGCAGGAGCACGTGAAGCATTTATCAACGGTGTACCCGCGATTGCACTTTCTCTAGACTG




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